annotate tool-data/pepnovo_models.loc.sample @ 11:401f500aae50 draft default tip

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 5c080b1e2b99f1c88f4557e9fec8c45c9d23b906
author galaxyp
date Fri, 14 Jun 2024 21:35:28 +0000
parents 146b59d2d3e5
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
8
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
1 # This is a sample file distributed with Galaxy that enables tools
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
2 # to use pepnovo models
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
3 # The file has three tab separated columns: name, value, and path.
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
4 # The idea is that there are a number of models in a directory:
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
5 # - each model directory has a unique name (columns 2 and 0)
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
6 # - each model can contain a set of models (column 1)
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
7 #
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
8 # The following example works fo the default models from
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
9 # http://proteomics.ucsd.edu/Software/PepNovo.html (just remove the comment
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
10 # chars and replace DIR_TO_PEPNOVO_MODELS)
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
11
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
12 #default_models CID_IT_TRYP DIR_TO_PEPNOVO_MODELS
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
13 #default_models LTQ_COMP DIR_TO_PEPNOVO_MODELS
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
14 #default_models DBC4_PEAK DIR_TO_PEPNOVO_MODELS
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
15 #default_models CID_IT_TRYP_TAG5 DIR_TO_PEPNOVO_MODELS
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
16 #default_models CID_IT_TRYP_TAG6 DIR_TO_PEPNOVO_MODELS
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
17 #default_models ITDNV_PEAK DIR_TO_PEPNOVO_MODELS
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
18 #default_models CID_IT_TRYP_SCORE DIR_TO_PEPNOVO_MODELS
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
19 #default_models CID_IT_TRYP_TAG3 DIR_TO_PEPNOVO_MODELS
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
20 #default_models CID_IT_TRYP_DNVPART DIR_TO_PEPNOVO_MODELS
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
21 #default_models CID_IT_TRYP_TAG4 DIR_TO_PEPNOVO_MODELS
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
22 #default_models CID_IT_TRYP_DB DIR_TO_PEPNOVO_MODELS
146b59d2d3e5 "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit e499c9124d3fd85a7fc47b95c206ce91a5e3678c-dirty"
galaxyp
parents:
diff changeset
23 #default_models CID_IT_TRYP_CSP DIR_TO_PEPNOVO_MODELS